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Long-read Assembly

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Supplementary materials
Supplementary Topic
Supplementary 1 NeSI HPC Authentication Factor Setup and Jupyter Login
Supplementary 2 NeSI File System, Working Directory, and Symlinks
Supplementary 3 Jupyter Virtual Desktop

References

  • Lorig-Roach, Ryan, et al. "Phased nanopore assembly with Shasta and modular graph phasing with GFAse." bioRxiv (2023): 2023-02.

  • Porubsky, David, et al. "Fully phased human genome assembly without parental data using single-cell strand sequencing and long reads." Nature biotechnology 39.3 (2021): 302-308.

  • Garg, Shilpa. "Towards routine chromosome-scale haplotype-resolved reconstruction in cancer genomics." Nature Communications 14.1 (2023): 1358.

  • Rautiainen, Mikko, et al. "Telomere-to-telomere assembly of diploid chromosomes with Verkko." Nature Biotechnology (2023): 1-9.

  • Rhie, Arang, et al. "Merqury: reference-free quality, completeness, and phasing assessment for genome assemblies." Genome biology 21.1 (2020): 1-27.